Jeroen de Ridder

6.4k citations

77 papers · 2.6k indexed · 2 hit papers · h-index 25

Co-authors: Wigard P. Kloosterman Franka J. Rang Lodewyk F.A. Wessels Marcel Reinders Maarten van Lohuizen Anton Berns Anthony G. Uren Johann de Jong
Topics: Gene expression and cancer classification (18 papers)Genomics and Phylogenetic Studies (16 papers)Cancer Genomics and Diagnostics (16 papers)
Cited by: Cancer Research Molecular Biology Health Informatics
Journals: Nature Cell Proceedings of the National Academy of Sciences
Partner nations: Netherlands United States United Kingdom

In The Last Decade

Jeroen de Ridder

73 papers receiving 2.6k citations

Hit Papers

align trajectories

What are hit papers?

Hit papers significantly outperform the citation benchmark for their cohort. A paper qualifies if it has ≥500 total citations, achieves ≥1.5× the top-1% citation threshold for papers in the same subfield and year (this is the minimum needed to enter the top 1%, not the average within it), or reaches the top citation threshold in at least one of its specific research topics.

From squiggle to basepair: computational approaches for improving nanopore sequencing read accuracy

2018 406 citations Wigard P. Kloosterman, Jeroen de Ridder et al. Genome biology profile →
Ultra-fast deep-learned CNS tumour classification during surgery

2023 96 citations Carlo Vermeulen, Marc Pagès-Gallego et al. Nature profile →

Peers

Countries citing papers authored by Jeroen de Ridder

Since Specialization

Citations

This map shows the geographic impact of Jeroen de Ridder's research. It shows the number of citations coming from papers published by authors working in each country. You can also color the map by specialization and compare the number of citations received by Jeroen de Ridder with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Jeroen de Ridder more than expected).

Fields of papers citing papers by Jeroen de Ridder

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Jeroen de Ridder. Nodes represent research fields, and links connect fields that are likely to share authors. Colored nodes show fields that tend to cite the papers produced by Jeroen de Ridder. The network helps show where Jeroen de Ridder may publish in the future.

Co-authorship network of co-authors of Jeroen de Ridder

This figure shows the co-authorship network connecting the top 25 collaborators of Jeroen de Ridder. A scholar is included among the top collaborators of Jeroen de Ridder based on the total number of citations received by their joint publications. Widths of edges represent the number of papers authors have co-authored together. Node borders signify the number of papers an author published with Jeroen de Ridder. Jeroen de Ridder is excluded from the visualization to improve readability, since they are connected to all nodes in the network.

All Works

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20 of 20 papers shown

#	Work	Indexed citations
1	Nanopore-based consensus sequencing enables accurate multimodal tumor cell-free DNA profiling 2025 ·Genome Research ·Li‐Ting Chen,Myrthe Jager,(unknown),(unknown),Tom van den Ende,Willem Vanderlinden,(unknown),Marc Pagès-Gallego,Ymke van der Pol,Nicolle Besselink,Norbert Moldován,Nizar Hami,Wigard P. Kloosterman,Hanneke W. M. van Laarhoven,Florent Moulière,Ronald P. Zweemer,Jan Lipfert,Sarah Derks,Alessio Marcozzi,Jeroen de Ridder	3
2	Direct detection of 8-oxo-dG using nanopore sequencing 2025 ·Nature Communications ·Marc Pagès-Gallego,(unknown),Nicolle Besselink,Roy Straver,(unknown),Carlo Vermeulen,Alessio Marcozzi,Markus J. van Roosmalen,Ruben van Boxtel,Boudewijn Burgering,Tobias B. Dansen,Jeroen de Ridder	2
3	Synthesis and functional screening of novel inhibitors targeting the HDAC6 zinc finger ubiquitin-binding domain 2024 ·European Journal of Medicinal Chemistry ·(unknown),(unknown),(unknown),(unknown),Jeroen de Ridder,Leentje Persoons,Steven De Jonghe,Dominique Schols,Mandeep Mann,Rachel Harding,Jorick Franceus,Tom Desmet,Kristof Van Hecke,Dorien Clarisse,Karolien De Bosscher,Matthias D’hooghe	1
4	Ultra-fast deep-learned CNS tumour classification during surgerybreakdown → 2023 ·Nature ·Carlo Vermeulen,Marc Pagès-Gallego,Lennart Kester,Mariëtte E.G. Kranendonk,Pieter Wesseling,Niels Verburg,Philip C. De Witt Hamer,(unknown),(unknown),Jasper van der Lugt,Kirsten van Baarsen,Eelco W. Hoving,Bastiaan B.J. Tops,Jeroen de Ridder	96
5	Comprehensive benchmark and architectural analysis of deep learning models for nanopore sequencing basecalling 2023 ·Genome biology ·Marc Pagès-Gallego,Jeroen de Ridder	37
6	Predicting response to enzalutamide and abiraterone in metastatic prostate cancer using whole-omics machine learning 2023 ·Nature Communications ·(unknown),Alexandra Danyi,Job van Riet,Ronald de Wit,Martin Sjöström,Felix Y. Feng,Jeroen de Ridder,Martijn P. Lolkema	10
7	Multi-country metabolic signature discovery for chicken health classification 2023 ·Metabolomics ·(unknown),Stefanía Magnúsdóttir,Edwin C.A. Stigter,(unknown),Judith Jans,M.S. Gilbert,Bart van der Hee,(unknown),W.J.J. Gerrits,Arie K. Kies,Jeroen de Ridder,Saskia W. C. van Mil	5
8	Echtvar: compressed variant representation for rapid annotation and filtering of SNPs and indels 2022 ·Nucleic Acids Research ·Brent S. Pedersen,Jeroen de Ridder	1
9	PolarMorphism enables discovery of shared genetic variants across multiple traits from GWAS summary statistics 2022 ·Bioinformatics ·(unknown),(unknown),Sander W. van der Laan,Jeroen de Ridder	7
10	Allele-specific expression of GATA2 due to epigenetic dysregulation in CEBPA double-mutant AML 2021 ·Blood ·Roger Mulet‐Lazaro,(unknown),Claudia Erpelinck-Verschueren,Eric M. Bindels,Mathijs A. Sanders,Carlo Vermeulen,Ivo Renkens,Peter J.M. Valk,Ari Melnick,Jeroen de Ridder,Michael Rehli,Claudia Gebhard,Ruud Delwel,Bas J. Wouters	13
11	Gene Networks Constructed Through Simulated Treatment Learning can Predict Proteasome Inhibitor Benefit in Multiple Myeloma 2020 ·Clinical Cancer Research ·(unknown),Pieter Sonneveld,Martin H. van Vliet,Jeroen de Ridder	7
12	Multi-contact 4C: long-molecule sequencing of complex proximity ligation products to uncover local cooperative and competitive chromatin topologies 2020 ·Nature Protocols ·Carlo Vermeulen,Amin Allahyar,Britta A. M. Bouwman,Peter H.L. Krijger,Marjon J.A.M. Verstegen,Geert Geeven,Christian Valdes‐Quezada,Ivo Renkens,Roy Straver,Wigard P. Kloosterman,Jeroen de Ridder,Wouter de Laat	30
13	MetaboShiny: interactive analysis and metabolite annotation of mass spectrometry-based metabolomics data 2020 ·Metabolomics ·(unknown),Stefanía Magnúsdóttir,Mia L. Pras‐Raves,(unknown),Judith Jans,Boudewijn Burgering,Saskia W. C. van Mil,Jeroen de Ridder	16
14	Predicting treatment benefit in multiple myeloma through simulation of alternative treatment effects 2018 ·Nature Communications ·(unknown),Pieter Sonneveld,Erik H. van Beers,Annemiek Broijl,Martin H. van Vliet,Jeroen de Ridder	19
15	Mapping and phasing of structural variation in patient genomes using nanopore sequencing 2017 ·Nature Communications ·(unknown),Markus J. van Roosmalen,Ivo Renkens,Marleen M. Nieboer,Sjors Middelkamp,Joep de Ligt,Giulia Pregno,Daniela Giachino,Giorgia Mandrile,Jose Espejo Valle-Inclán,Jerome Korzelius,Ewart de Bruijn,Edwin Cuppen,Michael E. Talkowski,Tobias Marschall,Jeroen de Ridder,Wigard P. Kloosterman	249
16	Hi-C Chromatin Interaction Networks Predict Co-expression in the Mouse Cortex 2015 ·PLoS Computational Biology ·Sepideh Babaei,Ahmed Mahfouz,Marc Hulsman,Boudewijn P. F. Lelieveldt,Jeroen de Ridder,Marcel Reinders	31
17	3D hotspots of recurrent retroviral insertions reveal long-range interactions with cancer genes 2015 ·Nature Communications ·Sepideh Babaei,Waseem Akhtar,Johann de Jong,Marcel Reinders,Jeroen de Ridder	25
18	Chromatin Position Effects Assayed by Thousands of Reporters Integrated in Parallel 2013 ·Cell ·Waseem Akhtar,Johann de Jong,Alexey V. Pindyurin,Ludo Pagie,Wouter Meuleman,Jeroen de Ridder,Anton Berns,Lodewyk F.A. Wessels,Maarten van Lohuizen,Bas van Steensel	235
19	Novel Candidate Cancer Genes Identified by a Large-Scale Cross-Species Comparative Oncogenomics Approach 2010 ·Cancer Research ·(unknown),Jaap Kool,Anthony G. Uren,Jeroen de Ridder,Lodewyk F.A. Wessels,Jos Jonkers,Graham R. Bignell,Adam P. Butler,Alistair G. Rust,Mario Brosch,Catherine H. Wilson,Louise van der Weyden,David A. Largaespada,Michael R. Stratton,P. Andy Futreal,Maarten van Lohuizen,Anton Berns,Lara S. Collier,Tim Hubbard,David J. Adams	34
20	Insertional Mutagenesis in Mice Deficient for p15Ink4b, p16Ink4a, p21Cip1 , and p27Kip1 Reveals Cancer Gene Interactions and Correlations with Tumor Phenotypes 2010 ·Cancer Research ·Jaap Kool,Anthony G. Uren,(unknown),Daoud Sie,Jeroen de Ridder,(unknown),Miranda van Uitert,Konstantin Matentzoglu,(unknown),Paul Krimpenfort,Jules Gadiot,Colin E.J. Pritchard,Jack Lenz,Anders H. Lund,Jos Jonkers,Jane Rogers,David J. Adams,Lodewyk F.A. Wessels,Anton Berns,Maarten van Lohuizen	25

About Jeroen de Ridder

Jeroen de Ridder is a scholar working on Cancer Research, Molecular Biology and Genetics, having authored 77 papers that have together received 2.6k indexed citations. Recurring topics across this work include Gene expression and cancer classification (18 papers), Genomics and Phylogenetic Studies (16 papers) and Cancer Genomics and Diagnostics (16 papers). The work is most often cited by research in Cancer Research (438 citations), Molecular Biology (1.9k citations) and Health Informatics (25 citations). Jeroen de Ridder has collaborated with scholars based in Netherlands, United States and United Kingdom. Frequent co-authors include Wigard P. Kloosterman, Franka J. Rang, Lodewyk F.A. Wessels, Marcel Reinders, Maarten van Lohuizen, Anton Berns, Anthony G. Uren, Johann de Jong, Waseem Akhtar and Jaap Kool. Their work appears in journals such as Nature, Cell and Proceedings of the National Academy of Sciences.

Rankless uses publication and citation data sourced from OpenAlex, an open and comprehensive bibliographic database. While OpenAlex provides broad and valuable coverage of the global research landscape, it—like all bibliographic datasets—has inherent limitations. These include incomplete records, variations in author disambiguation, differences in journal indexing, and delays in data updates. As a result, some metrics and network relationships displayed in Rankless may not fully capture the entirety of a scholar's output or impact.

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